Abstract

A review on SNP and other types of molecular markers and their use in animal genetics

Highlights

  • INTRODUCTIONMolecular markers, revealing polymorphisms at the DNA level, are key players in animal genetics

  • OLDER TYPES OF MOLECULAR GENETIC MARKERSMolecular markers, revealing polymorphisms at the DNA level, are key players in animal genetics

  • If we consider molecular genetic DNA markers in terms of the type of information they provide at a single locus, only three main categories can be described, in increasing degrees of interest: the bi-allelic dominant, such as RAPDs, AFLPs; the bi-allelic co-dominant, such as RFLPs, Single strand conformation polymorphism (SSCP) and the multi-allelic co-dominant, such as the microsatellites

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Summary

INTRODUCTION

Molecular markers, revealing polymorphisms at the DNA level, are key players in animal genetics. If we consider molecular genetic DNA markers in terms of the type of information they provide at a single locus, only three main categories can be described, in increasing degrees of interest: the bi-allelic dominant, such as RAPDs (random amplification of polymorphic DNA), AFLPs (amplified fragment length polymorphism); the bi-allelic co-dominant, such as RFLPs (restriction fragment length polymorphism), SSCPs (single stranded conformation polymorphism) and the multi-allelic co-dominant, such as the microsatellites. Bearing this in mind, some variations in the popularity of the markers used at different periods of time in the recent and quickly evolving field of molecular genetics, can be understood. Comparisons with other types of markers will be done, as a guideline to the markers to be chosen according to the various types of studies envisaged

Definition of SNPs and the generation of single nucleotide polymorphisms
SNPs: a new type of molecular marker?
Principal strategies
The human genome example
Farm animals
GENOTYPING SNPS
Direct hybridisation techniques: from ASO to chips
Restriction enzyme cutting
Single strand DNA conformation and heteroduplexes
Primer extension
Pyrosequencing
Changing genotyping techniques: the example of PrP
Which technique for the future?
Technical considerations
Statistical considerations
The use of fingerprinting techniques
SNPs versus microsatellites
Maps and QTL scans
Findings
CONCLUSION
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